INFO 2025-06-26 10:29:11,163 process.py process_mission():429 [1] commandline = src/data/process_dorado.py --start_year 2005 --end_year 2014 --num_cores 1 -v --noinput --clobber INFO 2025-06-26 10:29:11,163 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Noticed that log files aren't being read through completion by MultgenerateNetcdf - ctdToUse = ctd1 INFO 2025-06-26 10:29:11,163 process.py process_mission():449 [1] Processing OCCO mission 2005.012.00 by user docker_user on host eae60d30a712 INFO 2025-06-26 10:29:11,163 process.py download_process():165 [1] Download and processing steps for 2005.012.00 INFO 2025-06-26 10:29:11,163 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2005/2005012/2005.012.00 INFO 2025-06-26 10:29:11,163 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2005/2005012/2005.012.00 to /data/auv_data/dorado/missionlogs/2005.012.00 INFO 2025-06-26 10:29:11,642 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2005.012.00 INFO 2025-06-26 10:29:11,642 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.012.00/ctdDriver.log (5719515 bytes) INFO 2025-06-26 10:29:12,078 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.012.00/ctdDriver2.log (5723205 bytes) INFO 2025-06-26 10:29:12,517 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.012.00/gps.log (40748 bytes) INFO 2025-06-26 10:29:12,530 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.012.00/hydroscatlog.log (3903554 bytes) INFO 2025-06-26 10:29:12,990 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.012.00/navigation.log (19178430 bytes) INFO 2025-06-26 10:29:14,423 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.012.00/isuslog.log (390677 bytes) INFO 2025-06-26 10:29:14,465 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.012.00/parosci.log (3824534 bytes) INFO 2025-06-26 10:29:14,798 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.012.00/tailCone.log (3905707 bytes) INFO 2025-06-26 10:29:15,286 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.012.00/biolume.log (4429660 bytes) INFO 2025-06-26 10:29:15,737 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 10:29:15,973 logs2netcdfs.py download_process_logs():807 [1] Time to process: 4.33 seconds WARNING 2025-06-26 10:29:15,973 process.py download_process():196 [1] No lopc.bin file for 2005.012.00 INFO 2025-06-26 10:29:15,974 process.py calibrate():227 [1] Calibration steps for 2005.012.00 INFO 2025-06-26 10:29:16,134 calibrate.py _nudge_pos():1680 [1] seg# end_sec_diff end_lon_diff end_lat_diff len(segi) seg_min u_drift (cm/s) v_drift (cm/s) start datetime of segment INFO 2025-06-26 10:29:16,136 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 10:29:17,552 calibrate.py _nudge_pos():1806 [1] 167: 0.160 0.0077585 -0.0009707 11365 37.88 30.418 -4.749 2005-01-12T18:02:06.903022976 INFO 2025-06-26 10:29:17,949 calibrate.py _nudge_pos():1806 [1] 209: 0.150 -0.0000455 0.0000125 20 0.06 -106.684 36.458 2005-01-12T18:02:51.899940480 INFO 2025-06-26 10:29:17,979 calibrate.py _nudge_pos():1806 [1] 212: 0.160 -0.0000279 -0.0000129 15 0.05 -88.828 -51.407 2005-01-12T18:02:56.899598080 INFO 2025-06-26 10:29:17,990 calibrate.py _nudge_pos():1806 [1] 213: 0.160 -0.0000346 -0.0000167 20 0.06 -81.100 -48.975 2005-01-12T18:03:00.899323904 INFO 2025-06-26 10:29:18,144 calibrate.py _nudge_pos():1806 [1] 229: 0.160 0.0064317 -0.0001489 11379 37.93 25.181 -0.727 2005-01-12T18:41:12.902311040 INFO 2025-06-26 10:29:18,641 calibrate.py _nudge_pos():1806 [1] 281: 0.160 0.0054135 -0.0003471 11325 37.75 21.295 -1.704 2005-01-12T19:19:48.903654144 INFO 2025-06-26 10:29:18,700 calibrate.py _nudge_pos():1806 [1] 287: 0.160 0.0054045 -0.0003313 75 0.25 3253.531 -248.908 2005-01-12T19:20:08.902284160 INFO 2025-06-26 10:29:19,063 calibrate.py _nudge_pos():1806 [1] 324: 0.160 0.0000078 0.0000112 15 0.05 24.765 44.618 2005-01-12T19:20:48.899544192 INFO 2025-06-26 10:29:19,309 calibrate.py _nudge_pos():1806 [1] 350: 0.160 0.0043943 -0.0011480 11749 39.16 16.659 -5.432 2005-01-12T20:00:23.906845056 INFO 2025-06-26 10:29:19,946 calibrate.py _nudge_pos():1806 [1] 417: 0.160 0.0027737 -0.0007100 11375 37.91 10.861 -3.470 2005-01-12T20:39:24.906475520 INFO 2025-06-26 10:29:20,391 calibrate.py _nudge_pos():1806 [1] 462: 0.160 0.0017857 -0.0006126 11570 38.56 6.874 -2.944 2005-01-12T21:18:42.904941568 INFO 2025-06-26 10:29:21,125 calibrate.py _nudge_pos():1806 [1] 532: 0.160 0.0011323 -0.0004653 9735 32.45 5.180 -2.657 2005-01-12T21:52:18.906836096 INFO 2025-06-26 10:29:21,336 calibrate.py _nudge_pos():1862 [1] 533: - - - 5 0.01 - - INFO 2025-06-26 10:29:21,336 calibrate.py _nudge_pos():1868 [1] Points in final series = 81256 WARNING 2025-06-26 10:29:21,401 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 5.00 Hz INFO 2025-06-26 10:29:21,996 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:29:22,599 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:29:23,076 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:29:23,078 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2005.012.00/ctd1.nc INFO 2025-06-26 10:29:23,079 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 10:29:23,079 calibrate.py _range_qc_combined_nc():910 [1] Checked for data outside of these variables and ranges: [('ctd1_salinity', Range(min=30, max=40))] INFO 2025-06-26 10:29:23,080 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 10:29:23,650 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 15 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:29:24,130 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 15 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:29:24,132 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2005.012.00/ctd2.nc INFO 2025-06-26 10:29:24,133 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 10:29:24,133 calibrate.py _range_qc_combined_nc():910 [1] Checked for data outside of these variables and ranges: [('ctd2_salinity', Range(min=30, max=40))] INFO 2025-06-26 10:29:24,134 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 10:29:24,162 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 10:29:25,065 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 10:29:25,070 calibrate.py process_logs():3548 [1] Error processing biolume: missing variable "No variable named 'avg_biolume'. Variables on the dataset include ['time', 'rrr', 'cal_striing', 'pump', 'flow', 'humidity', 'temperature', 'time60hz', 'raw']" ERROR 2025-06-26 10:29:25,071 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.012.00 ERROR 2025-06-26 10:29:25,071 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.012.00 INFO 2025-06-26 10:29:25,136 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2005.012.00/dorado_2005.012.00_cal.nc INFO 2025-06-26 10:29:25,217 calibrate.py write_netcdf():3512 [1] Data variables written: biolume_depth, biolume_flow, biolume_time, ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_salinity, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, depth_filtdepth, depth_filtpres, depth_time, gps_latitude, gps_longitude, gps_time, hs2_bbp470, hs2_bbp676, hs2_depth, hs2_fl676, hs2_time, isus_nitrate, isus_quality, isus_temp, isus_time, navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_posx, navigation_posy, navigation_roll, navigation_time, navigation_yaw, nudged_latitude, nudged_longitude, tailcone_propRpm, tailcone_time, time INFO 2025-06-26 10:29:25,222 process.py align():251 [1] Alignment steps for 2005.012.00 INFO 2025-06-26 10:29:25,249 align.py process_cal():139 [1] Processing dorado_2005.012.00_cal.nc from /data/auv_data/dorado/missionnetcdfs/2005.012.00 INFO 2025-06-26 10:29:25,274 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:29:25,277 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:29:25,342 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:29:25,346 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:29:25,406 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:29:25,410 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:29:25,445 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 10:29:25,446 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 10:29:25,469 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:29:25,473 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:29:25,532 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.012.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:29:25,535 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:29:25,588 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.012.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:29:25,592 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:29:25,645 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.012.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:29:25,648 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:29:25,702 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.012.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:29:25,706 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:29:25,759 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.012.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:29:25,763 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:29:25,815 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.012.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:29:25,819 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:29:25,871 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.012.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:29:25,875 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:29:25,928 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.012.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:29:25,931 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:29:25,986 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.012.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:29:25,990 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:29:26,045 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.012.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:29:26,049 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:29:26,101 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.012.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:29:26,105 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:29:26,158 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.012.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:29:26,162 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:29:26,216 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.012.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:29:26,219 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:29:26,271 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.012.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:29:26,275 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:29:26,332 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.012.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:29:26,336 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:29:26,389 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.012.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:29:26,394 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:29:26,448 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.012.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:29:26,452 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:29:26,506 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.012.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:29:26,510 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:29:26,563 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.012.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:29:26,567 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:29:26,621 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.012.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:29:26,624 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:29:26,683 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 10:29:26,721 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 10:29:26,760 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 10:29:26,800 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 10:29:26,842 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:29:26,884 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2005.012.00/dorado_2005.012.00_align.nc INFO 2025-06-26 10:29:26,958 align.py write_netcdf():342 [1] Data variables written: biolume_depth, biolume_flow, biolume_latitude, biolume_longitude, biolume_time, ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_latitude, ctd1_longitude, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_latitude, ctd2_longitude, ctd2_salinity, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, hs2_bbp470, hs2_bbp676, hs2_depth, hs2_fl676, hs2_latitude, hs2_longitude, hs2_time, isus_depth, isus_latitude, isus_longitude, isus_nitrate, isus_quality, isus_temp, isus_time, navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_roll, navigation_time, navigation_yaw, tailcone_depth, tailcone_latitude, tailcone_longitude, tailcone_propRpm, tailcone_time INFO 2025-06-26 10:29:26,960 process.py resample():273 [1] Resampling steps for 2005.012.00 INFO 2025-06-26 10:29:26,961 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 10:29:26,986 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.012.00/dorado_2005.012.00_align.nc mission netCDF file INFO 2025-06-26 10:29:26,992 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.012.00/dorado_2005.012.00_align.nc mission netCDF file INFO 2025-06-26 10:29:26,993 resample.py get_mission_start_end():1145 [1] navigation: 2005-01-12T17:21:49.508626048 to 2005-01-12T21:52:40.905329024 (0 days 00:00:00 before mission_end) INFO 2025-06-26 10:29:26,995 resample.py get_mission_start_end():1145 [1] hs2 : 2005-01-12T17:21:32.469793024 to 2005-01-12T21:52:40.695343232 (0 days 00:00:00.209985792 before mission_end) INFO 2025-06-26 10:29:26,997 resample.py get_mission_start_end():1145 [1] ctd1 : 2005-01-12T17:21:54.778264960 to 2005-01-12T21:52:40.875330944 (0 days 00:00:00.029998080 before mission_end) INFO 2025-06-26 10:29:26,998 resample.py get_mission_start_end():1145 [1] ctd2 : 2005-01-12T17:21:44.188990336 to 2005-01-12T21:52:40.815335040 (0 days 00:00:00.089993984 before mission_end) INFO 2025-06-26 10:29:26,999 resample.py get_mission_start_end():1145 [1] isus : 2005-01-12T17:22:44.164881664 to 2005-01-12T21:52:40.705342720 (0 days 00:00:00.199986304 before mission_end) INFO 2025-06-26 10:29:27,001 resample.py get_mission_start_end():1145 [1] biolume : 2005-01-12T17:21:27.400106240 to 2005-01-12T21:52:39.985357824 (0 days 00:00:00.919971200 before mission_end) INFO 2025-06-26 10:29:27,003 resample.py get_mission_start_end():1145 [1] tailcone : 2005-01-12T17:21:27.930104192 to 2005-01-12T21:52:40.905329024 (0 days 00:00:00 before mission_end) INFO 2025-06-26 10:29:27,003 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.012.00/dorado_2005.012.00_align.nc mission netCDF file INFO 2025-06-26 10:29:27,004 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,189 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,222 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,254 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,288 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,317 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,345 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,373 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,400 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,427 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,453 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,479 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,505 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,530 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,555 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,579 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,606 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,634 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,663 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,691 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,719 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,747 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,774 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,789 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,801 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,814 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,827 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:27,858 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 10:29:28,045 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2005.012.00/dorado_2005.012.00_1S.nc INFO 2025-06-26 10:29:29,508 create_products.py gulper_odv():401 [1] No gulper times found for 2005.012.00 INFO 2025-06-26 10:29:29,509 process.py archive():337 [1] Archiving steps for 2005.012.00 INFO 2025-06-26 10:29:29,509 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2005.012.00/dorado_2005.012.00, BASE_PATH = /data/auv_data INFO 2025-06-26 10:29:29,509 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2005.012.00/dorado_2005.012.00 files to /Volumes/AUVCTD/surveys/2005/netcdf INFO 2025-06-26 10:29:29,510 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.012.00_1S.nc INFO 2025-06-26 10:29:29,527 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.012.00/dorado_2005.012.00_1S.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:29:29,528 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.012.00_cal.nc INFO 2025-06-26 10:29:29,598 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.012.00/dorado_2005.012.00_cal.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:29:29,599 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.012.00_align.nc INFO 2025-06-26 10:29:29,668 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.012.00/dorado_2005.012.00_align.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:29:29,689 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.012.00/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005012/2005.012.00 done. INFO 2025-06-26 10:29:29,707 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.012.00/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005012/2005.012.00 done. INFO 2025-06-26 10:29:29,712 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.012.00/gps.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005012/2005.012.00 done. INFO 2025-06-26 10:29:29,726 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.012.00/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005012/2005.012.00 done. INFO 2025-06-26 10:29:29,783 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.012.00/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005012/2005.012.00 done. INFO 2025-06-26 10:29:29,789 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.012.00/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005012/2005.012.00 done. INFO 2025-06-26 10:29:29,804 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.012.00/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005012/2005.012.00 done. INFO 2025-06-26 10:29:29,822 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.012.00/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005012/2005.012.00 done. INFO 2025-06-26 10:29:29,867 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.012.00/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005012/2005.012.00 done. INFO 2025-06-26 10:29:29,867 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 10:29:29,867 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.012.00/dorado_2005.012.00_processing.log /Volumes/AUVCTD/surveys/2005/netcdf